genome.fa.s8488.2.7.7.80.10.50.1000.19.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  19  of  54  ( 6450 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4701113--4701235	57	2.2	57	92	0	201	33	24	13	28	1.94
4705528--4705820	105	2.8	105	92	2	464	25	15	31	27	1.96
4710616--4710664	20	2.7	18	79	14	55	63	6	2	28	1.30
4711863--4711906	23	1.9	23	90	0	70	75	2	11	11	1.15
4714748--4714804	26	2.2	26	87	6	80	49	3	8	38	1.51
4715997--4716036	19	2.1	19	100	0	80	37	25	15	22	1.93
4717211--4717302	46	2.0	46	100	0	184	21	17	15	45	1.85
4722297--4722354	21	2.8	21	97	0	107	29	24	12	34	1.91
4725758--4725882	62	2.0	62	100	0	250	22	14	24	39	1.91
4727335--4727395	23	2.7	23	94	0	104	19	31	9	39	1.84
4727558--4727641	43	2.0	43	85	0	114	57	19	3	20	1.56
4728652--4728728	34	2.3	34	97	0	145	33	6	24	35	1.81
4734650--4734686	12	3.1	12	96	0	65	64	0	8	27	1.21
4751821--4751853	13	2.5	13	100	0	66	27	33	6	33	1.81
4756483--4756570	35	2.5	36	81	15	96	56	7	7	27	1.56
4763172--4763219	19	2.5	19	86	3	60	50	2	10	37	1.49
4775034--4775067	2	17.0	2	100	0	68	50	50	0	0	1.00
4791039--4791088	23	2.2	22	82	10	57	54	6	12	28	1.60
4794658--4794738	41	2.0	41	87	0	117	39	23	8	28	1.84
4794680--4794894	41	5.2	41	87	1	279	34	21	12	32	1.90
4794762--4794916	82	1.9	81	86	5	222	38	19	9	32	1.84
4801810--4801983	41	4.2	41	86	4	226	33	20	12	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4801850--4802027	82	2.2	82	82	2	205	38	19	9	32	1.84
4806216--4806249	2	17.5	2	93	6	61	50	0	0	50	1.00
4812328--4812363	18	1.9	19	88	5	56	58	2	5	33	1.36
4814997--4815050	2	27.0	2	88	0	81	50	5	0	44	1.25
4824667--4824706	16	2.4	16	88	12	55	67	2	2	27	1.16
4829545--4829600	21	2.7	21	91	0	85	32	28	14	25	1.94
4829545--4829608	21	3.0	21	88	2	65	37	25	12	25	1.91
4831573--4831742	81	2.1	81	82	5	209	31	20	9	38	1.84
4831943--4832487	164	3.3	164	83	4	620	25	18	19	37	1.94
4831928--4832489	273	2.1	273	85	2	770	25	18	19	37	1.94
4831928--4832487	109	5.1	110	83	6	629	25	18	19	36	1.94
4837373--4838773	54	25.9	53	77	11	1117	28	18	17	35	1.94
4837400--4838801	109	12.9	106	83	6	1310	28	18	17	35	1.93
4837400--4838801	218	6.5	218	83	5	1508	28	18	17	35	1.93
4849174--4849351	95	1.9	95	89	0	275	24	26	14	34	1.94
4849562--4849608	20	2.3	20	96	0	85	48	17	10	23	1.77
4854677--4854706	13	2.3	13	94	0	51	43	6	20	30	1.77
4854775--4854845	13	5.5	13	80	6	72	33	15	19	30	1.93
4857251--4857318	29	2.3	29	84	0	91	27	25	7	39	1.82
4857286--4857455	81	2.1	81	81	9	204	31	21	8	37	1.84
4862930--4862970	3	13.0	3	85	10	55	65	4	0	29	1.13
4865026--4865129	51	2.0	51	100	0	208	40	9	9	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4866794--4867226	183	2.3	185	79	7	436	39	4	8	48	1.54
4868359--4868399	20	2.0	20	100	0	82	41	19	4	34	1.73
4870357--4870407	16	3.2	16	97	0	93	33	25	25	15	1.95
4870392--4870501	58	1.9	57	88	1	166	39	18	20	21	1.93
4870422--4870501	27	2.8	28	83	12	101	38	17	21	22	1.93
4870392--4870501	31	3.7	30	80	14	122	39	18	20	21	1.93
4870912--4871041	64	2.0	64	95	0	233	43	10	13	33	1.77
4871004--4871051	23	2.1	23	92	0	78	37	10	16	35	1.83
4871187--4872208	182	5.6	181	94	1	1712	28	17	13	41	1.86
4872481--4872527	20	2.4	19	79	10	58	21	17	8	53	1.70
4872448--4872921	182	2.6	181	88	2	680	26	17	13	43	1.86
4873275--4873314	20	2.0	21	90	5	64	37	5	0	57	1.21
4873291--4873360	32	2.3	31	77	15	76	32	4	0	62	1.14
4876511--4876572	25	2.5	25	97	0	115	22	17	24	35	1.95
4877877--4877906	2	15.0	2	100	0	60	50	0	0	50	1.00
4882486--4882526	14	2.9	14	88	0	64	21	21	19	36	1.95
4883289--4883438	39	3.8	39	85	0	210	18	27	22	31	1.97
4883297--4883513	117	1.9	117	79	7	253	17	27	22	32	1.97
4883288--4883525	39	6.1	39	77	6	198	18	27	21	31	1.97
4887280--4887328	20	2.4	21	79	3	55	34	4	4	57	1.37
4891827--4891958	24	5.5	24	83	0	156	25	22	37	14	1.92
4904504--4904592	43	2.1	43	93	0	151	32	19	13	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4911682--4911842	4	40.0	4	86	3	216	0	27	1	70	1.02
4911988--4912048	25	2.4	25	94	0	104	39	0	27	32	1.57
4918377--4918500	31	4.0	31	79	1	122	31	17	18	32	1.94
4918439--4918499	32	1.9	32	89	0	95	32	16	18	32	1.93
4918377--4918498	62	2.0	62	85	1	163	30	18	18	32	1.95
4919463--4919520	20	2.7	20	81	10	62	27	20	18	32	1.97
4923107--4923173	30	2.2	31	81	2	73	32	26	20	19	1.97
4923157--4923259	31	3.3	31	73	10	102	33	13	17	35	1.89
4923135--4923256	62	2.0	62	82	8	149	31	16	18	33	1.93
4924222--4924279	20	2.7	20	81	10	62	27	20	18	32	1.97
4931200--4931251	22	2.5	21	79	11	63	26	17	30	25	1.97
4931652--4931688	14	2.5	15	83	16	51	35	10	21	32	1.88
4931803--4931867	23	2.9	22	80	13	62	24	21	26	27	1.99
4931815--4931875	23	2.7	23	84	5	79	19	22	26	31	1.98
4940292--4940329	13	2.7	14	80	12	51	23	2	0	73	0.95
4942118--4942172	21	2.6	21	77	8	67	32	16	10	40	1.83
4942160--4942214	21	2.5	22	82	11	69	30	12	14	41	1.83
4944534--4944600	29	2.3	29	97	2	125	32	2	8	55	1.46
4944818--4944866	20	2.4	21	79	3	55	34	4	4	57	1.37
4948722--4948819	30	3.2	31	75	7	94	61	26	8	4	1.42
4950874--4950965	24	3.9	24	79	2	105	23	22	36	16	1.94
4950874--4950964	47	1.9	48	84	2	121	23	23	37	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4953018--4953094	37	2.1	37	97	0	145	16	11	35	36	1.86
4954741--4954808	32	2.2	31	86	2	91	35	16	23	25	1.95
4959636--4959678	19	2.3	19	95	0	77	27	32	4	34	1.78
4959637--4959692	19	3.0	19	86	2	60	28	33	3	33	1.75
4966618--4966658	13	3.3	13	76	10	50	51	0	0	48	1.00
4968159--4968197	20	2.0	20	85	10	53	23	12	2	61	1.43
4969472--4969506	18	1.9	18	94	0	61	20	5	5	68	1.31
4969479--4969548	29	2.5	27	80	8	86	20	8	7	64	1.45
4969533--4969564	16	2.0	16	100	0	64	18	12	12	56	1.67
4973563--4973626	28	2.3	28	81	7	76	76	4	14	4	1.11
4973559--4973626	29	2.4	28	78	9	75	75	4	14	5	1.16
4973583--4973712	37	3.5	37	72	18	92	80	4	10	5	1.02
4973584--4973714	19	6.9	18	72	15	70	80	3	10	5	1.01
4973665--4973717	27	2.0	27	88	3	81	83	1	13	1	0.82
4973595--4973717	11	11.2	11	71	12	58	78	4	11	5	1.05
4977029--4977289	91	2.9	90	88	3	371	37	15	21	25	1.93
4977206--4977419	116	1.9	113	87	2	311	37	18	18	25	1.93
4982610--4982635	2	13.0	2	100	0	52	50	0	0	50	1.00
4982854--4982910	24	2.4	24	82	8	73	54	14	8	22	1.67
4982868--4982913	24	1.9	24	90	0	74	54	17	4	23	1.61
4985345--4985402	9	6.2	9	78	7	62	32	29	20	17	1.95
4985355--4985389	10	3.6	10	84	7	54	40	31	11	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4985350--4985399	19	2.6	19	96	0	91	36	32	16	16	1.90
4987459--4987566	24	4.5	24	78	2	101	54	15	11	18	1.70
4992077--4992158	24	3.4	24	86	3	103	60	8	9	20	1.54
5001773--5001807	2	17.5	2	93	0	61	48	48	2	0	1.16
5006660--5006714	21	2.6	21	85	8	67	32	12	14	40	1.84
5009923--5009971	10	5.1	10	75	9	57	36	28	14	20	1.92
5009920--5009971	19	2.7	19	96	0	95	34	28	17	19	1.94
5009920--5009967	9	5.1	9	75	9	51	35	31	16	16	1.92
5012027--5012135	24	4.5	24	82	2	94	54	13	11	21	1.70
5015865--5015916	23	2.3	23	89	0	77	30	42	13	13	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54